Dr ADAM BLANCHARD's Outputs (37)

In vitro determination of essential genes required by Streptococcus uberis to grow in a complex biological media relating to intramammary infection (2025)
Journal Article
Blanchard, A. M., & Leigh, J. A. (2025). In vitro determination of essential genes required by Streptococcus uberis to grow in a complex biological media relating to intramammary infection. Microbial Genomics, 11(6), Article 001425. https://doi.org/10.1099/mgen.0.001425

Streptococcus uberis is a leading cause of bovine mastitis, a disease of significant economic impact to the dairy industry. Understanding the genetic factors essential for bacterial survival in milk and during intramammary infection is crucial for de... Read More about In vitro determination of essential genes required by Streptococcus uberis to grow in a complex biological media relating to intramammary infection.

Progressive evolution of Streptococcus equi from Streptococcus equi subsp. zooepidemicus and adaption to equine hosts (2025)
Journal Article
Wilson, H. J., Dong, J., van Tonder, A. J., Ruis, C., Lefrancq, N., McGlennon, A., Bustos, C., Frosth, S., Léon, A., Blanchard, A. M., Holden, M., Waller, A. S., & Parkhill, J. (2025). Progressive evolution of Streptococcus equi from Streptococcus equi subsp. zooepidemicus and adaption to equine hosts. Microbial Genomics, 11(3), Article 001366. https://doi.org/10.1099/mgen.0.001366

Streptococcus equi subsp. equi causes the equine respiratory disease ‘strangles’, which is highly contagious, debilitating and costly to the equine industry. S. equi emerged from the ancestral Streptococcus equi subsp. zooepidemicus and continues to... Read More about Progressive evolution of Streptococcus equi from Streptococcus equi subsp. zooepidemicus and adaption to equine hosts.

Whole-Genome Sequencing Analysis Revealed High Genomic Variability, Recombination Events and Mobile Genetic Elements in Streptococcus uberis Strains Isolated from Bovine Mastitis in Colombian Dairy Herds (2025)
Journal Article
Rios Agudelo, P. A., Reyes Vélez, J., Olivera Angel, M., Blanchard, A. M., Cuesta Astroz, Y., Caraballo Guzmán, A., & Torres Lindarte, G. (in press). Whole-Genome Sequencing Analysis Revealed High Genomic Variability, Recombination Events and Mobile Genetic Elements in Streptococcus uberis Strains Isolated from Bovine Mastitis in Colombian Dairy Herds. Antibiotics, 14(3), Article 297. https://doi.org/10.3390/antibiotics14030297

Introduction: Streptococcus uberis is a poorly controlled cause of bovine intramammary infections and a common motivation for the use antibiotics in dairy farms worldwide. Therefore, studying the genomic characteristics of this pathogen is fundamenta... Read More about Whole-Genome Sequencing Analysis Revealed High Genomic Variability, Recombination Events and Mobile Genetic Elements in Streptococcus uberis Strains Isolated from Bovine Mastitis in Colombian Dairy Herds.

A rapid genome-proteome approach to identify rate-limiting steps in the butyrate production pathway in probiotic Clostridium butyricum, CBM588 (2025)
Journal Article
Wood, L., Omorotionmwan, B. B., Blanchard, A. M., Dowle, A., Tooth, D., Bailey, T. S., & Griffin, R. (2025). A rapid genome-proteome approach to identify rate-limiting steps in the butyrate production pathway in probiotic Clostridium butyricum, CBM588. Anaerobe, 92, Article 102940. https://doi.org/10.1016/j.anaerobe.2025.102940

Objectives: Clostridium butyricum ferments non-digested dietary fibre in the colon to produce butyric acid. Butyrate is a four-carbon, short-chain fatty acid (SCFA) which has multiple health benefits. Many microbial products of pharmaceutical or indu... Read More about A rapid genome-proteome approach to identify rate-limiting steps in the butyrate production pathway in probiotic Clostridium butyricum, CBM588.

Understanding the Molecular Interactions Between Influenza A Virus and Streptococcus Proteins in Co-Infection: A Scoping Review (2025)
Journal Article
Alshammari, A. K., Maina, M., Blanchard, A. M., Daly, J. M., & Dunham, S. P. (2025). Understanding the Molecular Interactions Between Influenza A Virus and Streptococcus Proteins in Co-Infection: A Scoping Review. Pathogens, 14(2), Article 114. https://doi.org/10.3390/pathogens14020114

Influenza A virus infections are known to predispose infected individuals to bacterial infections of the respiratory tract that result in co-infection with severe disease outcomes. Co-infections involving influenza A viruses and streptococcus bacteri... Read More about Understanding the Molecular Interactions Between Influenza A Virus and Streptococcus Proteins in Co-Infection: A Scoping Review.

Euclid preparation: LV. Exploring the properties of proto-clusters in the Simulated Euclid Wide Survey (2025)
Journal Article
Euclid Collaboration, Böhringer, H., Chon, G., Cucciati, O., Dannerbauer, H., Bolzonella, M., De Lucia, G., Cappi, A., Moscardini, L., Giocoli, C., Castignani, G., Hatch, N. A., Andreon, S., Bañados, E., Ettori, S., Fontanot, F., Gully, H., Hirschmann, M., Maturi, M., Mei, S., …Verza, G. (2025). Euclid preparation: LV. Exploring the properties of proto-clusters in the Simulated Euclid Wide Survey. Astronomy and Astrophysics, 693, Article A59. https://doi.org/10.1051/0004-6361/202451683

Galaxy proto-clusters are receiving increased interest since most of the processes shaping the structure of clusters of galaxies and their galaxy population happen at the early stages of their formation. The Euclid Survey will provide a unique opport... Read More about Euclid preparation: LV. Exploring the properties of proto-clusters in the Simulated Euclid Wide Survey.

Draft genomes of two contemporary strains of Babesia divergens (2024)
Journal Article
Apaa, T. T., Jones, B. P., Blanchard, A. M., & Johnson, N. (2025). Draft genomes of two contemporary strains of Babesia divergens. Microbiology Resource Announcements, 14(1), Article e00898-24. https://doi.org/10.1128/mra.00898-24

Babesia divergens, a major cause of bovine babesiosis with zoonotic potential, was analyzed through genomes Bdiv23B and Bdiv24B following Illumina sequencing of DNA extracted from PCR-positive cattle blood. The genomes comprised 3888 and 4032 predict... Read More about Draft genomes of two contemporary strains of Babesia divergens.

PIMMS-Dash: Accessible analysis, interrogation, and visualisation of high-throughput transposon insertion sequencing (TIS) data (2024)
Journal Article
Blanchard, A. M., Taylor, A., Warry, A., Shephard, F., Curwen, A., Leigh, J. A., Emes, R. D., & Egan, S. A. (2024). PIMMS-Dash: Accessible analysis, interrogation, and visualisation of high-throughput transposon insertion sequencing (TIS) data. Computational and Structural Biotechnology Journal, 23, 3780-3783. https://doi.org/10.1016/j.csbj.2024.10.025

Motivation: Current methods for visualising and interrogating high-throughput transposon insertion mutagenesis sequencing (TIS) data requires a significant time investment in learning bioinformatics, often producing static figures that do not facilit... Read More about PIMMS-Dash: Accessible analysis, interrogation, and visualisation of high-throughput transposon insertion sequencing (TIS) data.

Multiple novel caliciviruses identified from stoats (Mustela erminea) in the United Kingdom (2024)
Journal Article
Hinds, J., Apaa, T., Parry, R. H., Withers, A. J., MacKenzie, L., Staley, C., Morrison, J., Bennett, M., Bremner-Harrison, S., Chadwick, E. A., Hailer, F., Harrison, S. W., Lambin, X., Loose, M., Mathews, F., Tarlinton, R., & Blanchard, A. (2024). Multiple novel caliciviruses identified from stoats (Mustela erminea) in the United Kingdom. Access Microbiology, 6(7), Article 000813.v4. https://doi.org/10.1099/acmi.0.000813.v4

The Caliciviridae family, comprising positive-sense RNA viruses, is characterised by its non-enveloped, small virions, broad host range, and notable tendency for host switching. These viruses are primarily associated with gastroenteric disease, thoug... Read More about Multiple novel caliciviruses identified from stoats (Mustela erminea) in the United Kingdom.

Modelling the impact of wastewater flows and management practices on antimicrobial resistance in dairy farms (2024)
Journal Article
Todman, H., Helliwell, R., King, L., Blanchard, A., Gray-Hammerton, C. J., Hooton, S. P., Baker, M., Margerison, J., Wilson, P., Dodd, C. E. R., Morris, C., Raman, S., Hudson, C., Kreft, J.-U., Hobman, J. L., Kypraios, T., & Stekel, D. J. (2024). Modelling the impact of wastewater flows and management practices on antimicrobial resistance in dairy farms. npj Antimicrobials and Resistance, 2(1), Article 13. https://doi.org/10.1038/s44259-024-00029-4

Dairy slurry is a major source of environmental contamination with antimicrobial resistant genes and bacteria. We developed mathematical models and conducted on-farm research to explore the impact of wastewater flows and management practices on antim... Read More about Modelling the impact of wastewater flows and management practices on antimicrobial resistance in dairy farms.

A core genome multi-locus sequence typing scheme for Streptococcus uberis: an evolution in typing a genetically diverse pathogen (2024)
Journal Article
Whiley, D., Jolley, K., Blanchard, A., Coffey, T., & Leigh, J. (2024). A core genome multi-locus sequence typing scheme for Streptococcus uberis: an evolution in typing a genetically diverse pathogen. Microbial Genomics, 10(3), https://doi.org/10.1099/mgen.0.001225

Streptococcus uberis is a globally endemic and poorly controlled cause of bovine mastitis impacting the sustainability of the modern dairy industry. A core genome was derived from 579 newly sequenced S. uberis isolates, along with 305 publicly availa... Read More about A core genome multi-locus sequence typing scheme for Streptococcus uberis: an evolution in typing a genetically diverse pathogen.

Lack of detection of SARS-CoV-2 in wildlife from Kerala, India in 2020–21 (2024)
Journal Article
Zachariah, A., Krishnankutty, S. P., Manazhi, J., Omanakuttan, V., Santosh, S., Blanchard, A., & Tarlinton, R. (2024). Lack of detection of SARS-CoV-2 in wildlife from Kerala, India in 2020–21. Access Microbiology, 6(1), Article 000686. https://doi.org/10.1099/acmi.0.000686.v3

Spillover of SARS-CoV-2 into a variety of wild and domestic animals has been an ongoing feature of the human pandemic. The establishment of a new reservoir in white-tailed deer in North America and increasing divergence of the viruses circulating in... Read More about Lack of detection of SARS-CoV-2 in wildlife from Kerala, India in 2020–21.

Lack of detection of SARS-CoV-2 in British wildlife 2020–21 and first description of a stoat (Mustela erminea) Minacovirus (2023)
Journal Article
Apaa, T., Withers, A. J., Mackenzie, L., Staley, C., Dessi, N., Blanchard, A., Bennett, M., Bremner-Harrison, S., Chadwick, E. A., Hailer, F., Harrison, S. W. R., Lambin, X., Loose, M., Mathews, F., & Tarlinton, R. (2023). Lack of detection of SARS-CoV-2 in British wildlife 2020–21 and first description of a stoat (Mustela erminea) Minacovirus. Journal of General Virology, 104(12), https://doi.org/10.1099/jgv.0.001917

Repeat spillover of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) into new hosts has highlighted the critical role of cross-species transmission of coronaviruses and establishment of new reservoirs of virus in pandemic and epizootic sp... Read More about Lack of detection of SARS-CoV-2 in British wildlife 2020–21 and first description of a stoat (Mustela erminea) Minacovirus.

Advances in the understanding, detection and management of equine strangles (2023)
Journal Article
McLinden, L. A., Freeman, S. L., Daly, J., Blanchard, A., Kemp‐Symonds, J. G., & Waller, A. (2023). Advances in the understanding, detection and management of equine strangles. Equine Veterinary Education, 35(12), 662-672. https://doi.org/10.1111/eve.13845

Streptococcus equi subspecies equi (S. equi) is the causative organism of the upper respiratory disease of equids, strangles, characterised by pyrexia, lymphadenopathy and mucopurulent nasal discharge. Strangles was first reported over 750 years ago... Read More about Advances in the understanding, detection and management of equine strangles.

Sarbecoviruses of British horseshoe bats; sequence variation and epidemiology (2023)
Journal Article
Apaa, T., Withers, A. J., Staley, C., Blanchard, A., Bennett, M., Bremner-Harrison, S., Chadwick, E. A., Hailer, F., Harrison, S. W. R., Loose, M., Mathews, F., & Tarlinton, R. (2023). Sarbecoviruses of British horseshoe bats; sequence variation and epidemiology. Journal of General Virology, 104(6), https://doi.org/10.1099/jgv.0.001859

Horseshoe bats are the natural hosts of the Sarbecovirus subgenus that includes SARS-CoV and SARS-CoV- 2. Despite the devastating impact of the COVID-19 pandemic, there is still little known about the underlying epidemiology and virology of sarbecovi... Read More about Sarbecoviruses of British horseshoe bats; sequence variation and epidemiology.

Sarbecoviruses of British Horseshoe Bats; Sequence Variation and Epidemiology (2023)
Journal Article
Apaa, T., Withers, A. J., Staley, C. E., Blanchard, A. M., Bennett, M., Bremner-Harrison, S., Chadwick, E. A., Hailer, F., Harrison, S. W. R., Loose, M., Mathews, F., & Tarlinton, R. E. (2023). Sarbecoviruses of British Horseshoe Bats; Sequence Variation and Epidemiology. Journal of General Virology, 104(6), Article 001859. https://doi.org/10.1101/2023.02.14.528476

Horseshoe bats are the natural hosts of the Sarbecovirus subgenus that includes SARS-CoV and SARS-CoV- 2. Despite the devastating impact of the COVID-19 pandemic, there is still little known about the underlying epidemiology and virology of sarbecovi... Read More about Sarbecoviruses of British Horseshoe Bats; Sequence Variation and Epidemiology.

RNA-Seq of untreated wastewater to assess COVID-19 and emerging and endemic viruses for public health surveillance (2023)
Journal Article
Stockdale, S. R., Blanchard, A. M., Nayak, A., Husain, A., Nashine, R., Dudani, H., McClure, C. P., Tarr, A. W., Nag, A., Meena, E., Sinha, V., Shrivastava, S. K., Hill, C., Singer, A. C., Gomes, R. L., Acheampong, E., Chidambaram, S. B., Bhatnagar, T., Vetrivel, U., Arora, S., …Monaghan, T. M. (2023). RNA-Seq of untreated wastewater to assess COVID-19 and emerging and endemic viruses for public health surveillance. The Lancet Regional Health – Southeast Asia, 14, Article 100205. https://doi.org/10.1016/j.lansea.2023.100205

Background: The COVID-19 pandemic showcased the power of genomic sequencing to tackle the emergence and spread of infectious diseases. However, metagenomic sequencing of total microbial RNAs in wastewater has the potential to assess multiple infectio... Read More about RNA-Seq of untreated wastewater to assess COVID-19 and emerging and endemic viruses for public health surveillance.

High genetic diversity and zoonotic potential of Staphylococcus aureus strains recovered from bovine intramammary infections in Colombians dairy herds (2022)
Journal Article
Torres, G., Vargas, K., Reyes-Vélez, J., Jiménez, N., Blanchard, A., & Olivera-Angel, M. (2023). High genetic diversity and zoonotic potential of Staphylococcus aureus strains recovered from bovine intramammary infections in Colombians dairy herds. Comparative Immunology, Microbiology and Infectious Diseases, 93, Article 101940. https://doi.org/10.1016/j.cimid.2022.101940

Genotyping of Staphylococcus aureus isolated from mastitis has become a fundamental tool to understand its complex epidemiology and to evaluate spillover events. The aim of this study was to describe the frequency of genotypes of the S. aureus strain... Read More about High genetic diversity and zoonotic potential of Staphylococcus aureus strains recovered from bovine intramammary infections in Colombians dairy herds.

Genome Reference Assembly for Bottlenecked Southern Australian Koalas (2022)
Journal Article
Blanchard, A. M., Emes, R. D., Greenwood, A. D., Holmes, N., Loose, M. W., McEwen, G. K., Meers, J., Speight, N., & Tarlinton, R. E. (2023). Genome Reference Assembly for Bottlenecked Southern Australian Koalas. Genome Biology and Evolution, 15(1), Article evac176. https://doi.org/10.1093/gbe/evac176

Koala populations show marked differences in inbreeding levels and in the presence or absence of the endogenous Koala retrovirus (KoRV). These genetic differences among populations may lead to severe disease impacts threatening koala population viabi... Read More about Genome Reference Assembly for Bottlenecked Southern Australian Koalas.

Natural Mycoplasma Infection Reduces Expression of Pro-Inflammatory Cytokines in Response to Ovine Footrot Pathogens (2022)
Journal Article
Blanchard, A. M., Baumbach, C. M., Michler, J. K., Pickwell, N. D., Staley, C. E., Franklin, J. M., Wattegedera, S. R., Entrican, G., & Tötemeyer, S. (2022). Natural Mycoplasma Infection Reduces Expression of Pro-Inflammatory Cytokines in Response to Ovine Footrot Pathogens. Animals, 12(23), Article 3235. https://doi.org/10.3390/ani12233235

Ovine footrot is a complex multifactorial infectious disease, causing lameness in sheep with major welfare and economic consequences. Dichelobacter nodosus is the main causative bacterium; however, footrot is a polymicrobial disease with Fusobacteriu... Read More about Natural Mycoplasma Infection Reduces Expression of Pro-Inflammatory Cytokines in Response to Ovine Footrot Pathogens.